Yes..I was getting invalid directory for Kalman filter and USBHost (adk.h missing) and compilation was failing. The directory under hardware was empty so copied from GitHub after that compiled successfully.

The problem is with uploading where I think my computer is not able to connect properly. Under tools menu everything looks perfect. Balanduino is with com port 25.During uploading only RX Led blinks during each attempt.

Do you got an Arduino running at 3.3V or do you have an ISP programmer? You can easily turn your Arduino into an ISP: https://www.arduino.cc/en/Tutorial/ArduinoISP, but it has to run at 3.3V or you might damage the other chips on the Balanduino PCB.